genome.fa.s6.2.7.7.80.10.50.1000.27.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  27  of  109  ( 13028 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9017461--9017640	89	2.0	90	82	5	222	31	11	12	45	1.77
9021305--9021370	29	2.2	29	83	5	78	37	10	9	42	1.71
9021819--9021856	2	19.5	2	94	5	69	50	0	0	50	1.00
9022216--9022578	181	2.0	182	99	0	719	43	10	8	37	1.69
9027801--9027964	45	3.6	44	68	11	125	42	11	21	25	1.86
9027810--9028021	90	2.3	91	81	2	257	38	14	23	24	1.91
9027932--9028258	174	1.9	174	84	1	440	37	15	25	22	1.93
9029642--9029683	21	2.0	21	95	0	75	35	21	0	42	1.53
9032061--9032117	25	2.2	25	84	3	69	49	0	1	49	1.11
9032439--9032511	33	2.3	33	80	4	87	34	4	6	54	1.46
9036826--9036858	17	1.9	17	93	0	57	60	9	3	27	1.42
9037225--9037283	27	2.2	27	84	6	75	66	5	1	27	1.22
9038922--9039156	45	5.3	45	70	10	167	25	24	20	28	1.99
9038921--9039130	44	4.7	44	66	12	133	27	23	21	27	1.99
9038899--9039419	267	2.0	267	87	2	769	26	22	21	29	1.99
9038871--9039419	89	6.2	89	82	3	665	25	22	21	29	1.99
9040773--9040862	48	1.9	47	88	4	137	14	23	18	43	1.87
9049410--9049453	18	2.4	18	96	0	79	13	9	18	59	1.60
9051021--9051070	25	2.0	25	92	0	82	30	4	32	34	1.76
9053960--9054058	45	2.2	45	87	5	139	33	29	5	32	1.79
9058507--9058565	27	2.1	28	87	3	84	66	5	1	27	1.22
9058580--9058618	21	1.9	20	89	5	60	56	2	7	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9061683--9061749	34	2.0	34	82	2	82	53	8	0	37	1.32
9067010--9067079	28	2.6	26	72	17	63	44	4	4	47	1.42
9067540--9067649	45	2.6	44	81	11	133	32	29	4	33	1.78
9067629--9067666	16	2.4	16	86	0	58	28	34	2	34	1.71
9068051--9068119	33	2.2	31	85	12	88	46	2	1	49	1.25
9072873--9072934	33	1.9	32	87	9	90	25	24	17	32	1.97
9072885--9072948	33	1.9	33	84	6	85	28	23	20	28	1.99
9073207--9073260	27	2.1	27	82	6	67	40	9	12	37	1.76
9073217--9073288	27	2.7	27	80	6	76	30	13	19	36	1.91
9073870--9073903	17	1.9	18	94	5	61	23	44	20	11	1.84
9073321--9074025	354	2.0	352	88	2	1051	26	28	20	24	1.99
9077368--9077497	24	5.7	23	75	16	94	40	8	3	48	1.49
9077368--9077450	22	3.7	23	80	18	79	38	7	3	50	1.47
9077433--9077516	24	3.7	23	77	12	75	40	10	2	46	1.52
9077641--9077716	27	2.7	28	82	12	93	39	2	5	52	1.38
9081491--9081517	12	2.2	12	100	0	54	18	18	7	55	1.65
9082101--9082134	6	5.7	6	89	0	50	70	14	2	11	1.27
9082137--9082204	6	11.2	6	74	14	52	79	1	14	4	0.96
9082131--9082204	11	6.2	11	76	14	67	79	1	14	4	0.94
9082939--9082981	8	6.0	7	84	10	52	72	0	13	13	1.13
9082938--9082981	22	2.0	22	86	8	63	72	0	13	13	1.12
9084168--9084366	87	2.3	87	90	1	301	27	21	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9084311--9084423	57	2.0	57	91	0	181	17	25	26	30	1.98
9084365--9084536	88	2.0	88	91	2	283	25	25	26	23	2.00
9084383--9084527	45	3.3	44	73	7	141	25	24	28	22	1.99
9084576--9085126	44	11.8	43	70	18	270	32	19	21	26	1.97
9084614--9085124	142	3.6	142	95	0	851	32	20	20	26	1.97
9085219--9085451	50	4.7	50	74	2	182	35	21	18	24	1.95
9085199--9085451	100	2.5	100	85	1	319	33	22	17	25	1.96
9086887--9086954	23	3.0	25	76	24	69	35	7	2	54	1.43
9086916--9087042	24	5.6	23	73	15	95	38	11	3	47	1.55
9087254--9087299	21	2.2	20	84	3	56	23	8	0	67	1.18
9090262--9090306	22	2.1	21	91	4	72	11	17	28	42	1.84
9090396--9090540	43	3.4	43	97	0	263	30	31	19	18	1.96
9090551--9090675	43	2.9	42	90	1	187	28	34	16	20	1.95
9090437--9090651	114	1.9	114	93	0	367	28	34	17	19	1.94
9091013--9091078	19	3.3	19	69	19	62	59	21	3	16	1.51
9090997--9091078	41	2.0	41	95	0	146	57	20	6	15	1.60
9093723--9093799	40	1.9	41	86	2	111	20	23	18	37	1.94
9094340--9094377	7	5.4	7	87	0	58	34	47	0	18	1.49
9094332--9094383	21	2.5	21	77	0	59	32	42	0	25	1.55
9094432--9094470	20	2.0	19	90	5	60	38	46	0	15	1.46
9094927--9095250	41	7.9	41	88	2	454	28	26	24	20	1.99
9095300--9095422	40	3.1	38	80	8	138	24	21	18	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9097436--9097476	19	2.2	19	90	0	64	39	14	12	34	1.84
9107436--9107475	15	2.9	14	82	10	55	35	0	20	45	1.51
9108124--9108182	30	1.9	31	89	3	93	20	23	8	47	1.77
9108426--9108455	10	3.1	10	95	4	53	56	0	0	43	0.99
9110947--9110972	13	2.0	13	100	0	52	38	0	7	53	1.30
9133745--9133794	23	2.2	24	82	10	68	34	0	14	52	1.42
9133754--9133796	13	3.5	13	75	18	56	32	0	18	48	1.48
9133752--9133798	23	2.0	23	95	0	85	34	0	19	46	1.50
9135768--9135868	51	2.0	52	84	5	134	46	1	26	24	1.63
9135829--9135871	11	3.8	11	90	3	59	41	4	32	20	1.73
9139365--9139816	9	51.8	9	69	19	282	32	1	21	44	1.61
9139369--9139810	16	26.9	16	71	16	238	32	1	21	45	1.60
9139354--9139810	25	18.2	25	74	14	340	32	1	21	45	1.61
9139491--9139547	29	2.0	29	96	0	105	36	0	21	42	1.53
9139479--9139767	70	4.2	70	88	5	421	33	0	21	44	1.57
9141089--9141156	22	3.1	21	71	12	66	39	10	25	25	1.87
9141460--9141915	124	3.7	123	85	0	565	25	23	17	33	1.97
9142170--9142240	14	4.9	14	78	14	65	33	40	1	23	1.64
9142250--9142300	14	3.6	14	76	5	57	37	31	0	31	1.58
9142498--9142566	21	3.2	22	85	8	97	39	40	0	20	1.52
9142940--9143081	41	3.5	41	89	1	223	33	28	17	19	1.95
9145371--9145522	75	2.0	75	91	5	243	32	21	13	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9146238--9146289	26	2.0	25	88	3	77	55	1	9	32	1.43
9146599--9146634	12	3.0	12	91	0	54	58	2	5	33	1.36
9152289--9152341	22	2.4	22	81	12	56	39	1	3	54	1.29
9152372--9152452	39	2.0	40	90	2	128	38	40	2	18	1.64
9153046--9153098	22	2.4	22	81	12	56	39	1	3	54	1.29
9153143--9153223	40	2.0	40	88	11	123	39	35	2	22	1.67
9153495--9153544	15	3.3	15	80	8	57	38	46	0	16	1.47
9153498--9153543	22	2.1	22	88	8	67	36	47	0	15	1.45
9153520--9153549	15	2.0	15	93	0	51	36	43	0	20	1.52
9153897--9154176	113	2.5	116	78	9	290	23	23	25	27	2.00
9154119--9154299	72	2.5	71	80	9	217	21	24	24	29	1.99
9154838--9154873	12	3.0	12	91	0	54	58	2	5	33	1.36
9155449--9155476	11	2.5	11	100	0	56	7	50	35	7	1.57
9155634--9155670	12	3.2	12	88	3	58	78	0	5	16	0.93
9155634--9155666	6	5.7	6	85	7	50	81	0	3	15	0.80
9155633--9155688	27	2.3	23	81	12	58	76	0	8	14	1.00
9158974--9159011	15	2.5	15	95	0	67	34	23	5	36	1.78
9161286--9161380	35	2.7	35	81	0	109	15	10	31	42	1.81
9163024--9163057	16	2.1	16	100	0	68	44	11	11	32	1.77
9171429--9171523	35	2.7	35	81	0	109	15	10	31	42	1.81
9173167--9173200	16	2.1	16	100	0	68	44	11	11	32	1.77
9188023--9188257	118	2.0	118	99	0	461	41	23	15	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9191941--9192032	38	2.5	38	82	3	107	34	39	10	15	1.82
9194120--9194162	21	1.9	24	81	13	56	55	4	0	39	1.20
9196634--9196687	27	2.0	26	86	10	74	9	18	5	66	1.39
9209191--9209253	30	2.1	30	93	0	108	57	14	3	25	1.52
9215840--9215869	15	2.0	15	100	0	60	46	6	6	40	1.56
9219812--9219841	16	1.9	16	93	6	53	83	0	0	16	0.65
9221607--9221636	16	1.9	16	93	6	53	83	0	0	16	0.65
9223395--9223593	88	2.2	88	82	0	245	28	26	17	27	1.98
9223422--9223568	44	3.3	44	78	3	170	24	27	15	31	1.96
9240834--9241217	189	2.0	190	97	1	727	29	22	20	26	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109